Single cell type - FAM117A - The Human Protein Atlas

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	FAM117A
Gene descriptionⁱ Full gene name according to HGNC.	Family with sequence similarity 117 member A
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Erythroid cells - Oxygen transport (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Cell type enhanced (Erythroid cells, dendritic cells)
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Immune cell enhanced (basophil)
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in many
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Cell line enhanced (U-266/70, U-266/84)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in many
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Erythroid cells, dendritic cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

FAM117A is part of cluster 6 Erythroid cells - Oxygen transport with confidenceⁱ 1
151 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
RBM38	RNA binding motif protein 38	0.7742	24
C9orf78	Chromosome 9 open reading frame 78	0.6712	6
GPR174	G protein-coupled receptor 174	0.6364	7
FGFR1OP2	FGFR1 oncogene partner 2	0.6282	6
IL3	Interleukin 3	0.6123	7
GYPC	Glycophorin C (Gerbich blood group)	0.6094	6
SHISAL2A	Shisa like 2A	0.6043	7
NARF	Nuclear prelamin A recognition factor	0.6036	6
OR4D1	Olfactory receptor family 4 subfamily D member 1	0.6025	7
TENT5C	Terminal nucleotidyltransferase 5C	0.5942	7
TCEANC	Transcription elongation factor A N-terminal and central domain containing	0.5930	6
CARMIL2	Capping protein regulator and myosin 1 linker 2	0.5853	7
PPP1R2C	PPP1R2C family member C	0.5812	7
RUNX3	RUNX family transcription factor 3	0.5755	24
PPP2R5C	Protein phosphatase 2 regulatory subunit B'gamma	0.5717	24

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	15.5 nTPM
Breast	16.7 nTPM
Adipose tissue	14.2 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	9.3 nTPM
Lung	9.3 nTPM

Astrocytes	5.2 nTPM
Brain	5.2 nTPM

B-cells	19.5 nTPM
Breast	48.1 nTPM
Lymph node	23.7 nTPM
PBMC	20.0 nTPM
Adipose tissue	19.5 nTPM
Kidney	19.0 nTPM
Liver	15.6 nTPM
Bone marrow	15.5 nTPM
Stomach	15.5 nTPM
Spleen	10.4 nTPM
Colon	8.0 nTPM

Dendritic cells	56.4 nTPM
Adipose tissue	76.9 nTPM
Breast	72.2 nTPM
PBMC	20.0 nTPM

Endothelial cells	9.9 nTPM
Breast	25.3 nTPM
Liver	20.2 nTPM
Esophagus	13.4 nTPM
Endometrium	12.6 nTPM
Skin	11.2 nTPM
Eye	10.5 nTPM
Heart muscle	9.8 nTPM
Testis	7.1 nTPM
Placenta	6.8 nTPM
Skeletal muscle	6.7 nTPM
Lung	6.2 nTPM
Prostate	4.8 nTPM
Ovary	4.0 nTPM
Pancreas	0.0 nTPM

Erythroid cells	104.4 nTPM
Liver	155.0 nTPM
Bone marrow	53.8 nTPM

Fibroblasts	9.3 nTPM
Heart muscle	19.4 nTPM
Adipose tissue	17.1 nTPM
Breast	13.5 nTPM
Esophagus	11.7 nTPM
Skin	9.6 nTPM
Skeletal muscle	9.1 nTPM
Ovary	6.2 nTPM
Placenta	4.8 nTPM
Lung	4.5 nTPM
Stomach	4.4 nTPM
Prostate	2.4 nTPM

Intestinal goblet cells	4.9 nTPM
Rectum	5.4 nTPM
Colon	5.0 nTPM
Small intestine	4.4 nTPM

Macrophages	7.6 nTPM
Breast	38.2 nTPM
Endometrium	19.8 nTPM
Skeletal muscle	10.2 nTPM
Esophagus	7.9 nTPM
Spleen	7.2 nTPM
Adipose tissue	6.4 nTPM
Pancreas	5.1 nTPM
Bone marrow	5.0 nTPM
Prostate	4.6 nTPM
Ovary	3.7 nTPM
Kidney	3.0 nTPM
Lung	1.7 nTPM
Testis	1.7 nTPM
PBMC	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	1.0 nTPM
Rectum	3.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	34.9 nTPM
Adipose tissue	60.7 nTPM
Stomach	54.5 nTPM
Esophagus	24.6 nTPM
Spleen	18.5 nTPM
Bone marrow	16.5 nTPM

Respiratory ciliated cells	1.5 nTPM
Lung	1.5 nTPM
Bronchus	1.5 nTPM

Smooth muscle cells	10.2 nTPM
Breast	22.1 nTPM
Heart muscle	17.7 nTPM
Adipose tissue	17.0 nTPM
Skeletal muscle	14.2 nTPM
Esophagus	10.9 nTPM
Skin	10.1 nTPM
Endometrium	7.8 nTPM
Bronchus	3.9 nTPM
Prostate	3.7 nTPM
Ovary	3.5 nTPM
Pancreas	1.4 nTPM

Basal prostatic cells	1.3 nTPM
Prostate	1.3 nTPM

Basal respiratory cells	2.1 nTPM
Bronchus	2.1 nTPM

Basal squamous epithelial cells	7.4 nTPM
Esophagus	7.4 nTPM

Collecting duct cells	7.3 nTPM
Kidney	7.3 nTPM

T-cells	27.9 nTPM
Breast	68.4 nTPM
Adipose tissue	65.3 nTPM
Skeletal muscle	44.3 nTPM
Endometrium	44.1 nTPM
Esophagus	32.8 nTPM
Lymph node	27.8 nTPM
Liver	26.5 nTPM
PBMC	25.6 nTPM
Skin	24.4 nTPM
Ovary	17.8 nTPM
Bone marrow	17.2 nTPM
Colon	16.6 nTPM
Stomach	15.5 nTPM
Prostate	14.2 nTPM
Kidney	13.7 nTPM
Spleen	13.6 nTPM
Lung	6.1 nTPM

Undifferentiated cells	2.7 nTPM
Colon	3.4 nTPM
Rectum	3.2 nTPM
Small intestine	1.8 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC